Actually this follows plainly as a consequence of an important classical result in descriptive set theory, namely, the set of all Borel real-valued functions on a metric space is the smallest class containing the continuous functions, and closed under point-wise convergence, that is, the Baire class. (And, of course, nothing changes, if you consider $\mathbb{R}^d$-valued maps instead, or also, maps valued in the unit ball of $\mathbb{R}^d$).
A suitable reference is e.g. A. S. Kechris' Classical Descriptive Set Theory, ch. 11, or this paper by R. W. Hansell available on-line, that contains all ingredients. (Alternatively, you may replace "Borel vector field" with "Baire vector field" in the statement).
For any bounded Borel map $V:[0,1]\times\mathbb{R}^d\to\mathbb{R}^d$ we can consider the operator $F_V$ on the Banach space $E:=C^0([0,1],\mathbb{R}^d), \|\cdot\|_\infty$ defined by $F_V( \gamma)(t)=\int_0^tV(\tau,\gamma(\tau))d\tau$ for any $\gamma\in E$ and $t\in[0,1]$. Two simple facts easily follow by bounded convergence:
- If $V$ is continuous on $[0,1]\times\mathbb{R}^d$, then $F_V$ is continuous on $E$. Indeed, if $\gamma_n\to\gamma$ in $E$
$$\big\|F_V(\gamma )-F_V(\gamma_n)\big\|_\infty\le\int_0^1\big\|V(\tau,\gamma(\tau))-V(\tau,\gamma_n(\tau))\big\| d\tau=o(1).$$
- If $V_n$ converges point-wise to $V$ on $[0,1]\times\mathbb{R}^d$, then $F_{V_n}$ converges point-wise to $F_V$ on $E$. Indeed, if $V_n\to V$ point-wise, then for any $\gamma\in E$
$$\big\|F_V(\gamma )-F_{V_n}(\gamma)\big\|_\infty\le\int_0^1\big\|V(\tau,\gamma(\tau))-V_n(\tau,\gamma(\tau))\big\| d\tau=o(1).$$
As a consequence, the set of all bounded Borel maps $V:[0,1]\times\mathbb{R}^d\to\mathbb{R}^d$ such that $F_V$ is a Borel map on $E$ contains all bounded continuous functions and it is closed under point-wise convergence. Therefore it is the whole class of bounded Borel maps.
To conclude, let's denote ${\mathbb 1}$ and $\mathrm{ev_0}$ the identity map on $E$, respectively, the evaluation at $0$ (seen as a bounded, linear rank-one operator on $E$). The set
$$\mathcal{C}=\big\{\gamma\in E : \gamma(t)-F_V(\gamma)(t)-\gamma(0)=0,\; \forall\, t\in[0,1] \big\},$$
which is the zero-set of the Borel map ${\mathbb 1}-F_V-\mathrm{ev_0}$, is therefore a Borel set.
Rmk: From the above argument also follows by induction that, more precisely, if $V$ is in the Baire class $\alpha$ for a countable ordinal $\alpha$, then so is $F_A$ on $E$, so that $\mathcal{C}$ is in the corresponding Borel set hierarchy.